Comments (2)
drpatelh
commented on May 23, 2024
Hi @jonbra! Hope you are well! Providing your own bowtie2 indices isn't possible with v1.1.0 but it will be in the next release! Sorry, it is taking much longer than anticipated to get it out because we have been adding some cool new functionality and simplifying things substantially. Come find us on the #viralrecon channel on the nf-core Slack workspace. Be easier to have a chat about these sorts of things and get updates.
from viralrecon.
jonbra
commented on May 23, 2024
I see, thanks! (I could also fix this by reducing the --max_memory btw).
from viralrecon.
Related Issues (20)
- epi2me-labs/wf-cnv failed during analysis HOT 7
- Allow viralrecon to take gtf as input annotation file
- primer_set is not taking param
- Artic v5 mismatched primer names in artic-ncov2019 repo cause certain amplicons to be erroneously filtered/removed
- Add QIAseq DIRECT SARS-CoV-2 Kit amplicons
- Argument input-fasta is missing in NFCORE_VIRALRECON:ILLUMINA:CONSENSUS_BCFTOOLS:CONSENSUS_QC:NEXTCLADE_RUN" HOT 4
- Problem installing viralrecon
- Adding "aggregate" and "plot" methods in the freyja subworkflow HOT 4
- Error running version 2.6.0 with Nanopore data in process NFCORE_VIRALRECON:NANOPORE:ARTIC_MINION
- Unable to download the python script HOT 3
- Split authors in generated RO crate
- Adding "--grouplineages" parameter in the nf-core/viralrecon HOT 3
- Make cutadapt primer's position ext.arg
- Properly deal with multiqc in the config files before the next release HOT 3
- Temp file problem in VARIANTS_IVAR:BCFTOOLS_SORT HOT 1
- Allow skipping `freyja boot` HOT 1
- `MOSDEPTH_AMPLICON` doesn't run in `dev` branch HOT 1
- Non-SCV2 amplicon run returns consensus genomes with no low-coverage masking HOT 1
- nf-core/viralrecon run halted due to R version clash HOT 1
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